PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

ONIVA07G17480.1

Organism

Oryza nivara

Taxonomic ID

4536

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C3H

Protein Properties

Length: 671aa MW: 71099.9 Da PI: 6.9733

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA07G17480.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.8	3.7e-08	278	300	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 ++C++f+r G C+ Gd+C F+Hg ONIVA07G17480.1 278 VPCPNFRRPGGCPSGDSCEFSHG 300 79********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF48403	8.43E-13	66	147	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	8.3E-15	66	148	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	0.66	68	99	IPR002110	Ankyrin repeat
PROSITE profile	PS50297	19.12	68	144	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50088	9.217	68	100	IPR002110	Ankyrin repeat
Pfam	PF12796	3.6E-8	68	138	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	1.57E-12	70	147	No hit	No description
SMART	SM00248	0.0044	104	136	IPR002110	Ankyrin repeat
PROSITE profile	PS50088	12.743	104	139	IPR002110	Ankyrin repeat
PRINTS	PR01415	9.4E-5	105	120	IPR002110	Ankyrin repeat
PRINTS	PR01415	9.4E-5	123	137	IPR002110	Ankyrin repeat
PROSITE profile	PS50103	13.995	274	302	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.6E-4	274	301	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-5	275	303	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.7E-6	278	300	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.4E-6	278	301	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.6E-4	306	339	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	21	310	333	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 671 aa Download sequence Send to blast
MGELADLVVV PSQPPLAGGR RDRLAALLEL AAADDVDGLR GALAEGGEEA AELADGVGLW 60 YGRSKAYEAR TPLMVAATYG SAGVVSLLVG LGGCVDVNRR PGADGATALH CAASGGSRNA 120 VAVVKLLLAA GADPATSDSA GRFPADVILA PPASPDALGD LEVLLGRRRA LAVATSVASG 180 SSSPPLSSSP DEGNRSPSSR SSSLSPITVD RGKKEYPVDP TLPDIKSSVY ASDEFRMFAF 240 KVRPCSRAYS HDWTECPFVH PGENARRRDP RKHPYTAVPC PNFRRPGGCP SGDSCEFSHG 300 VFESWLHPSQ YRTRLCKEGA ACARRICFFA HDEDELRHVP HNSGAGLLSP RASSSIDMTA 360 AAALGLLPGS PTRHFAPPPV SPSAGSNGGA AAAHWLQGSR LRSSFNARDA AVDDLGMLLE 420 WESQYLGALC LPPSSRPQPR LSAGLSIRPT IAPSNLEDMY ASDMAMSPRF PNDQGHSVYS 480 PAHKSALLNK LHQQKGLLSP VNTNRMYSPR ALDPSSLAHS PFGGMSPRSP RTMEPTSPLS 540 ARVGAPATQR EMFEQFASLN KHQLPSVGSP RNSTAWGTVG SPMGKVDWGV DSEELVRLRR 600 PAQPGFGEDE TDVSWVQSLV SNAELNGKRG EVQGMPGTSA LMNRPDLNNQ GDLLDQTVIG 660 AWLEQMHLDQ K

Sequence ? help Back to Top

Protein Sequence Length: 671 aa Download sequence Send to blast

MGELADLVVV PSQPPLAGGR RDRLAALLEL AAADDVDGLR GALAEGGEEA AELADGVGLW  60
YGRSKAYEAR TPLMVAATYG SAGVVSLLVG LGGCVDVNRR PGADGATALH CAASGGSRNA  120
VAVVKLLLAA GADPATSDSA GRFPADVILA PPASPDALGD LEVLLGRRRA LAVATSVASG  180
SSSPPLSSSP DEGNRSPSSR SSSLSPITVD RGKKEYPVDP TLPDIKSSVY ASDEFRMFAF  240
KVRPCSRAYS HDWTECPFVH PGENARRRDP RKHPYTAVPC PNFRRPGGCP SGDSCEFSHG  300
VFESWLHPSQ YRTRLCKEGA ACARRICFFA HDEDELRHVP HNSGAGLLSP RASSSIDMTA  360
AAALGLLPGS PTRHFAPPPV SPSAGSNGGA AAAHWLQGSR LRSSFNARDA AVDDLGMLLE  420
WESQYLGALC LPPSSRPQPR LSAGLSIRPT IAPSNLEDMY ASDMAMSPRF PNDQGHSVYS  480
PAHKSALLNK LHQQKGLLSP VNTNRMYSPR ALDPSSLAHS PFGGMSPRSP RTMEPTSPLS  540
ARVGAPATQR EMFEQFASLN KHQLPSVGSP RNSTAWGTVG SPMGKVDWGV DSEELVRLRR  600
PAQPGFGEDE TDVSWVQSLV SNAELNGKRG EVQGMPGTSA LMNRPDLNNQ GDLLDQTVIG  660
AWLEQMHLDQ K

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4gmr_A	1e-11	19	147	15	142	OR266 DE NOVO PROTEIN
4gmr_B	1e-11	19	147	15	142	OR266 DE NOVO PROTEIN
Search in ModeBase

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CP012615	0.0	CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015647507.1	0.0	zinc finger CCCH domain-containing protein 50
Refseq	XP_015647508.1	0.0	zinc finger CCCH domain-containing protein 50
Swissprot	Q84SL2	0.0	C3H50_ORYSJ; Zinc finger CCCH domain-containing protein 50
TrEMBL	A0A0E0I2H4	0.0	A0A0E0I2H4_ORYNI; Uncharacterized protein
STRING	ONIVA07G17480.1	0.0	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP823	37	126

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G41900.1	1e-127	CCCH-type zinc finger protein with ARM repeat domain

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]